Some answers to your observations:
1. We've temporarily disabled gates, doors, and bridges while we wait for some plugin fixes to some edge cases with pre-1.13 ones potentially being able to lag out the server
2. Phantoms are per-player here, if you lay in a bed at night for a few seconds (long enough for the screen to stop fading out as you rest), phantoms won't bother you for another three game days. Do this once every couple of Minecraft days and phantoms won't be a problem for you. As long as you're rested up, even phantoms already spawned for other players won't harm you.
3. This feature is a planned feature for 1.14, it isn't in the game yet.
4. Correct, that functionality was removed from the raffle plugin, it underwent quite a lot of changes for 1.13. Some things were added, some things were changed, others were removed. How it is now is as close as can be configured to being how it's always been.
5. There's some little things like that which is a result of the world conversion that had to happen for 1.12-to-1.13, we're ironing those out as we're able
6. That's been like that a long time, the pistons are moving something, it's just hidden from player view. It's just a timer for maintenance tasks around that farm area.
If you find things that aren't quite right, like something that appears to be broken or wrong, such as commands not doing what they should or missing villagers, for example, let staff know or put in an admin request.
You can submit a new admin request at:
https://tools.famcraft.com/request-an-admin/You can get a link to the admin request page in-game at any time by running this command: /admin